bamUtil

Description

bamutil website

This module lets you use the bamUtil software Programs that perform operations on SAM/BAM files. All of these programs are built into a single executable, bam. Tools to Rewrite SAM/BAM Files: convert, writeRegion, splitChromosome, splitBam, trimBam, rgMergeBam, polishBam, findCigars. Tools to Modify & write SAM/BAM Files: clipOverlap, filter, revert, squeeze Informational Tools: validate, diff, stats, gapInfo Tools to Print Information In Readable Format dumpHeader, dumpRefInfo, dumpIndex, readReference Additional Tools bam2FastQ Dummy/Example Tools readReference

Environment Modules

Run module spider bamutil to find out what environment modules are available for this application.

Environment Variables

• HPC_BAMUTIL_DIR - installation directory
• HPC_BAMUTIL_BIN - executable directory

Categories

biology, genomics